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TranscriptomicsIsolation and genomic characterization of cancer stem cells in head and neck cancer
This study investigated the use of three different established cell sorting strategies to isolate and characterize stem cells from head and neck cancer cell lines. Five low passage cell lines were subjected to cell sorting based on Hoechst side population, Aldefluor and CD44 expression. Isolated cel...
ORGANISM(S): Homo sapiens 
2014-03-02 | E-GEOD-55487 | biostudies-arrayexpress
TranscriptomicsGene expression characterization of HPV positive head and neck cancer to predict response to Chemoradiation
Background: Human papillomavirus has been shown to have a causal role in the development of head and neck squamous cell carcinoma and represents a distinct and well-defined pathology. While HPV-positive HNSCC is associated with a better response to treatment and prognosis, a subset of patients do no...
ORGANISM(S): Homo sapiens 
2014-12-19 | E-GEOD-40020 | biostudies-arrayexpress
TranscriptomicsGene expression characterization of high and low grade clear cell renal cell carcinoma
Patients undergoing either partial or radical nephrectomy at William Beaumont Hospital (Royal Oak, MI) were consented prior to surgery with local IRB oversight. Samples were collected at time of surgery and stored at -80°C according to CAP (College of American Pathologist)-accredited standard opera...
ORGANISM(S): Homo sapiens 
2016-01-04 | E-GEOD-68417 | biostudies-arrayexpress
GenomicsWhole-Genome Sequencing of Acute Myeloid Leukemia

We used massively parallel sequencing technology to sequence the genomic DNA of tumor cells (leukemic bone marrow) and normal cells (skin biopsy) obtained from patients with Acute Myeloid Leukemia (AML). Patients had either de novo AML (AML with no prior diagnosis of a hematologic disease or expo...

phs000159.v4.p2 | EGA
GenomicsAcquired Copy Number Alterations in Adult Acute Myeloid Leukemia Genomes

We performed genome-wide copy number analysis with paired normal and tumor DNA obtained from 86 adult patients with de novo AML using the Affymetrix Genome-Wide Human SNP array 6.0 containing 1.85 million features. Acquired copy number alterations (CNA) were confirmed using an independent, hig...

phs000201.v1.p1 | EGA
GenomicsWhole Genome Sequencing of Pediatric Acute Megakaryoblastic Leukemia

We have performed whole genome sequencing of 4 cases of pediatric acute megakaryoblastic leukemia to identify somatic genetic alterations driving leukemogenesis.

phs000413.v1.p1 | EGA
TranscriptomicsTranscriptome Sequence Analysis of Pediatric Acute Megakaryoblastic Leukemia Identifies An Inv(16)(p13.3;q24.3)-Encoded CBFA2T3-GLIS2 Fusion Protein As a Recurrent Lesion in 39% of Non-Infant Cases [2010]
Transcriptome Sequence Analysis of Pediatric Acute Megakaryoblastic Leukemia Identifies An Inv(16)(p13.3;q24.3)-Encoded CBFA2T3-GLIS2 Fusion Protein As a Recurrent Lesion in 39% of Non-Infant Cases:  A Report From the St. Jude Children’s Research Hospital – Washington University Pediatric Cancer Gen...
ORGANISM(S): Homo sapiens 
2012-11-20 | E-GEOD-35202 | biostudies-arrayexpress
TranscriptomicsTranscriptome Sequence Analysis of Pediatric Acute Megakaryoblastic Leukemia Identifies An Inv(16)(p13.3;q24.3)-Encoded CBFA2T3-GLIS2 Fusion Protein As a Recurrent Lesion in 39% of Non-Infant Cases [2007]
Transcriptome Sequence Analysis of Pediatric Acute Megakaryoblastic Leukemia Identifies An Inv(16)(p13.3;q24.3)-Encoded CBFA2T3-GLIS2 Fusion Protein As a Recurrent Lesion in 39% of Non-Infant Cases:  A Report From the St. Jude Children’s Research Hospital – Washington University Pediatric Cancer Gen...
ORGANISM(S): Homo sapiens 
2012-11-20 | E-GEOD-35201 | biostudies-arrayexpress
GenomicsEstrogen Receptor Positive Breast Cancer: Aromatase Inhibitor Response Study

Highly variable outcomes are observed in patients with estrogen receptor positive (ER+) breast cancer who undergo preoperative estrogen deprivation therapy with aromatase inhibitors (AI). In this study, 46 tumor and normal genomes and 31 exomes of participants selected from two clinical trials of...

phs000472.v1.p1 | EGA
GenomicsWhole Genome Sequencing of a Triple Negative Breast Cancer Patient: Matched Primary Tumor, Normal, Metastasis and Xenograft samples

Breast Cancer Subject Participant ID 700064 (Source Sample names: 6888 and 206). We used massively parallel DNA sequencing technologies to screen entire genomes, in an unbiased manner, for genetic changes associated with tumor growth and metastasis. We describe the complete genome sequence ...

phs000245.v1.p1 | EGA
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